Showing : gseabase • reset
1
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Cleaning GeneSets from GSEA
msigdb GSEABase GSVA
written 3.9 years ago by • 0
0
votes
1
reply
145
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News: Online RNA-seq analysis course 26-29th Janury
EnhancedVolcano GSEABase pheatmap Workshop DESeq2
written 28 days ago by ▴ 20
0
votes
1
reply
900
views
News: Gene Set Enrichment Analysis in Bioconductor course
GSEABase GeneSetEnrichment goseq
11 months ago info ▴ 10
0
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1
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2.4k
views
Problems with GSEA
GSEABase
updated 12 months ago by ★ 4.1k • written 12 months ago by • 0
2
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2
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1.3k
views
fgsea stuck in an infinite loop in the middle of the run
GSEABase fgsea msigdb GeneSetEnrichment
17 months ago Assa Yeroslaviz ★ 1.5k
0
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2
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737
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Problem finding certain variables when importing a public database GSE73103
GSEABase GenomicDistributionsData
21 months ago Yveto • 0
0
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1
reply
1.1k
views
"Counts" in enrichGO
GSEABase
updated 2.0 years ago by ▴ 10 • written 2.0 years ago by • 0
3
votes
1
reply
1.7k
views
GSEABase::getBroadSets returns error with the latest MSigDB version
GSEABase
updated 5.2 years ago by 25k • written 5.2 years ago by ▴ 60
7
votes
11
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4.6k
views
Updating Gene Annotation in GeneSetCollection {GSEABase}
GSEABase annotation gsea gsva GeneSetCollection
updated 5.8 years ago by ★ 3.4k • written 5.8 years ago by ▴ 60
3
votes
4
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3.2k
views
GSEABase - Map gene/transcript IDs to GOslims?
gseabase go gene ontology goslim
6.0 years ago • updated 2.9 years ago samwhite ▴ 20
7
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9
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5.7k
views
GSEABase - View/extract GO terms mapped to each GOslim
go GSEABase GOslim gene ontology
6.0 years ago • updated 2.9 years ago samwhite ▴ 20
0
votes
3
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2.4k
views
GO enrichment for non-model plant species
clusterProfiler GSEABase GMTfiles
6.5 years ago sandeep.amberkar18 ▴ 10
2
votes
2
replies
2.2k
views
GSEABase: how to extract shortDescription from GeneSetCollection object
GSEABase
updated 6.8 years ago by 25k • written 6.8 years ago by ★ 4.1k
1
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1
reply
2.7k
views
Tutorial: Update gene symbols in GeneSetCollection
gseabase msigdb genesetcollection Tutorial
written 7.6 years ago by ▴ 170
0
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3
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2.6k
views
Issues in generating workable rank file for GSEA
pre-ranked GSEA DESeq2 gseabase GSEA
updated 7.7 years ago by 43k • written 7.7 years ago by • 0
3
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3
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2.6k
views
convert Gene collection to gene list for camera function
limma GSEABase
updated 8.0 years ago by 68k • written 8.0 years ago by • 0
2
votes
2
replies
2.0k
views
Error thrown by GSEABase::getBroadSets function: Error: 'getBroadSets' failed to create gene sets: invalid BroadCollection category: 'archived'
GSEABase getBroadSets invalid BroadCollection category archived MSigDB v6.1
updated 8.2 years ago by ★ 3.4k • written 8.2 years ago by ▴ 60
1
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2
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2.9k
views
RESOLVED- GSEAbase: problem with GOCollection (getAnnMap: package GO not availale)
gene ontology gseabase
8.4 years ago maeva.mollion • 0
0
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0
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1.4k
views
Does GSEABase support organismDb objects?
GSEABase
8.6 years ago sandmann.t ▴ 70
0
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2
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2.5k
views
Problem with GeneSetCollection after updating R devel packages.
bug gseabase example
9.0 years ago jcrodriguez ▴ 20
2
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2
replies
1.8k
views
Using GeneSetCollection objects of GSEABase in piano package
piano gseabase
9.0 years ago Lluís Revilla Sancho ▴ 760
2
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3
replies
1.9k
views
Probable bug in GSEABase package.
software error bug gseabase
9.0 years ago jcrodriguez ▴ 20
1
vote
2
replies
2.3k
views
Question on GeneSetCollection in GSEABase
gseabase geneset
updated 9.1 years ago by 25k • written 9.1 years ago by • 0
1
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1
reply
2.3k
views
GSEABase getGmt() fails when more than 1 line contains duplicates
gseabase bug
updated 9.4 years ago by 25k • written 9.4 years ago by ▴ 10
9
votes
6
replies
7.6k
views
GSEA-like enrichment score calculation
GSEA enrichment analysis gseabase
updated 9.7 years ago by 53k • written 9.7 years ago by ▴ 20
0
votes
3
replies
5.2k
views
Creating custom geneset
gseabase
10.0 years ago pbachali ▴ 50
8
votes
16
replies
7.9k
views
Gene set enrichment analysis
gostat gsea gseabase topgo
updated 11.2 years ago by ★ 1.1k • written 11.2 years ago by ▴ 10
0
votes
3
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2.4k
views
Running the GSEA algorithm
Microarray GeneSetEnrichment PGSEA GSEABase GSRI SeqGSEA Microarray GeneSetEnrichment GSRI
updated 11.9 years ago by ★ 13k • written 11.9 years ago by ▴ 70
0
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5
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4.3k
views
Running the GSEA algorithm
Infrastructure PGSEA GSEABase SeqGSEA Infrastructure PGSEA GSEABase SeqGSEA
updated 11.9 years ago by ★ 1.3k • written 11.9 years ago by ▴ 680
0
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0
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1.5k
views
correlation between two pathways' genes
Microarray Pathways GSEABase Microarray Pathways GSEABase
13.2 years ago Robert Castelo ★ 3.4k
0
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0
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1.6k
views
[Rocky] - R code for PGSEA package to identify differentially expressed genes
GO affy limma GLAD PGSEA GSEABase GO affy limma GLAD PGSEA GSEABase
14.0 years ago Valerie Obenchain ★ 6.8k
0
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4
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2.8k
views
conversion of geneset species ID
GSEABase GSEABase
updated 14.4 years ago by 25k • written 14.4 years ago by ▴ 930
0
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1
reply
1.7k
views
creating a UniprotIdentifier within GSEABase
Annotation Cancer hgu95av2 convert GSEABase Annotation Cancer hgu95av2 convert GSEABase
updated 14.5 years ago by 25k • written 14.5 years ago by ▴ 910
0
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0
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2.2k
views
GO with R and Bioconductor
Transcription Annotation GO GOstats biomaRt topGO GSEABase goseq Transcription Annotation
15.0 years ago Duke ▴ 210
0
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1
reply
2.2k
views
Help with GSEA package
hu6800 cdf genefilter multtest affy gcrma siggenes annaffy GSEABase hu6800 cdf multtest
updated 15.2 years ago by 25k • written 15.2 years ago by ▴ 20
0
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0
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1.6k
views
creating GO and KEGG gene set collections for E. coli
GO GSEABase gage GO GSEABase gage
15.2 years ago Clémentine Dressaire ▴ 120
0
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1
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1.6k
views
GSEABase and Broad Inst Sets
Annotation hgu133plus2 hgu95av2 GSEABase Annotation hgu133plus2 hgu95av2 GSEABase
updated 15.6 years ago by 25k • written 15.6 years ago by ▴ 930
0
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3
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2.2k
views
Romer and symbols2indices query
probe limma GSEABase probe limma GSEABase
15.8 years ago Gordon Smyth 53k
0
votes
3
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2.1k
views
GSEAbase and limma
limma GSEABase limma GSEABase
updated 16.2 years ago by 53k • written 16.2 years ago by ▴ 840
0
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3
replies
2.0k
views
GeneSetCollection using EntrezID
Annotation Pathways GSEABase Annotation Pathways GSEABase
updated 16.2 years ago by 25k • written 16.2 years ago by ▴ 840
0
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3
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1.9k
views
question using GSEABase
GO GOstats topGO GSEABase GO GOstats topGO GSEABase
updated 16.7 years ago by 25k • written 16.7 years ago by ▴ 80
0
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1
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1.8k
views
GSEABase GOCollection wrong ontology
Annotation GO hgu133plus2 affy GSEABase Annotation GO hgu133plus2 affy GSEABase
updated 17.0 years ago by 25k • written 17.0 years ago by ▴ 330
0
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0
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1.7k
views
GSEA to discover co-regulated genes
Transcription Annotation Pathways Infrastructure probe convert GSEABase Transcription
17.0 years ago Paul Geeleher ★ 1.3k
2
votes
2
replies
1.9k
views
GSEA
GSEABase GSEABase
updated 17.2 years ago by 25k • written 17.2 years ago by ★ 1.0k
0
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1
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1.9k
views
GSEABase
GO illuminaHumanv2 lumi GSEABase GO illuminaHumanv2 lumi GSEABase
updated 17.2 years ago by 25k • written 17.2 years ago by ▴ 280
0
votes
2
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1.7k
views
using GSEAlm with GO geneSetCollections
GO affy goTools Category GSEABase GSEAlm GO affy goTools Category GSEABase GSEAlm
updated 17.3 years ago by ▴ 90 • written 17.3 years ago by ▴ 830
0
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0
replies
1.5k
views
GSEA packages that depend on GSEABase?
GO GSEABase GO GSEABase
17.5 years ago Mark W Kimpel ▴ 830
0
votes
3
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3.0k
views
How to carry out Gene Set Enrichment Analysis(GSEA) on an ordered list of Entrezgene ids?
Proteomics hgu95av2 GSEABase Proteomics hgu95av2 GSEABase
17.6 years ago anna freni sterrantino ▴ 120
0
votes
0
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1.6k
views
How to carry out Gene Set Enrichment Analysis(GSEA) on an ordered list of Entrezgene ids?
Proteomics hgu95av2 GSEABase Proteomics hgu95av2 GSEABase
17.6 years ago Chanchal Kumar ▴ 130
0
votes
3
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2.3k
views
GeneSetCollection from GSEA
Proteomics GSEABase Proteomics GSEABase
updated 18.0 years ago by 25k • written 18.0 years ago by ▴ 70
51 results • Page 1 of 2
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Comment: Bulk RNAseq analysis for by Mariami • 0
Thank you for the explanation. I understand, although at the moment we are limited in our ability to increase N. My concern came from the o…
Answer: Bulk RNAseq analysis for by Gordon Smyth 53k
All three packages allow paired comparisons, where the clone is the "pair". limma moreover allows mixed models (just run `voomLmFit` with `…
Comment: Announcing a New Journal - Bioinformatics Methods and Applications - Now Open fo by a2a2haa • 0
By promoting reproducible analysis, the scientific community can better understand the precise mechanisms that make [Hydrogen inhalation sa…
Answer: Bulk RNAseq analysis for by James W. MacDonald 68k
In my experience, the within-clone variability of differentiated stem cells is often as large or larger than the between-clone variability,…
Comment: Jobs at Ensembl by frostybuddyy • 0
I found your blog "Jobs at Ensembl" quite fascinating! The way you talked about the convergence of bioinformatics and data science in emplo…
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Comment: Are transformed values from rlog /vst log2 normalized counts?
Are transformed values from rlog /vst log2 normalized counts?
Answer: Bulk RNAseq analysis for
Answer: DiffBind differential analysis
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